RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9768
(406 letters)
>3t5v_B Nuclear mRNA export protein THP1; PCI, mRNA nuclear export, mRNA,
nuclear, transcription; 2.90A {Saccharomyces cerevisiae}
Length = 455
Score = 255 bits (653), Expect = 4e-81
Identities = 73/446 (16%), Positives = 149/446 (33%), Gaps = 58/446 (13%)
Query: 1 MSAVERYLQRVKMVWEGRDSNGLSVCFSFKNPTFKH-EDFQKNVEDYVIRRYLEHPIF-- 57
M + L + + + L++ S + +D + ++E
Sbjct: 1 MDMANQLLDELA----HGNFSHLTLNLSQNGREIAILQKQLTGFDDKQLETFVEQHPAMP 56
Query: 58 ------ELVSAHLKCVQSIQANNFNEAYLSQSTIVQGFIKMF--QQCKEDNWLLPVVQTV 109
+ ++ L + + + + Q I L+PV
Sbjct: 57 NDTRFKIMCTSFLNYARDVDPWSAWSSSDLIFEFYQCLINCLINDNAPHIEMLIPVATRE 116
Query: 110 SLNLRLVSNKVDNKALASSIQDGNSGAKPRDALETTTEMLMTCFRICTSD---NRTSEND 166
+ + ++ K+D+ L + L + +L F ++
Sbjct: 117 TEFIINLAGKLDSFHLQL-------HTRSHQFLSHISSILSRLFNSIKPPRGNASSTNIP 169
Query: 167 SKKWGMLPFVNQLFKVYFRISKLHLMKPLIRAIESSQY---KDKSSLSQQITYKYYVGRK 223
K+ +L VN+L +YFRI L + + + ++ L QQI Y+Y +GR
Sbjct: 170 GKQRILLYLVNKLNNIYFRIESPQLCSNIFKNFQPKSMLAHFNEYQLDQQIEYRYLLGRY 229
Query: 224 AMFDSDYKTANEYLTFAFQR------CHKSSKKNKRLILIYLVPVKMLLGFMPTRELL-- 275
+ +S A AFQ +++ +N IL Y++P ++LG M L
Sbjct: 230 YLLNSQVHNAFVQFNEAFQSLLNLPLTNQAITRNGTRILNYMIPTGLILGKMVKWGPLRP 289
Query: 276 --DKYDLLQLWDVTVAVKGGQINQLSDAMTKHQTFFIKCGIYL-ILEKLKMITYRNF--- 329
+ + + V+ G I +S + +++ + + +LEKL M+TYRN
Sbjct: 290 FLSQETIDNWSVLYKHVRYGNIQGVSLWLRQNERHLCARQLLIVLLEKLPMVTYRNLIKT 349
Query: 330 -YNIHKDINKNSVVELQQFLQALHY---------------VEGKHIDLEDTHCLLCNLIH 373
+ + + L + ++ +L LI+
Sbjct: 350 VIKSWTTEWGQNKLPYSLIERVLQLSIGPTFEDPGAQEITIYNGIHSPKNVENVLVTLIN 409
Query: 374 DGQLKGYISLAHQKVVLSKTDPFPKL 399
G L+ Q V+ KT ++
Sbjct: 410 LGLLRANCFPQLQLCVVKKTTMIQEI 435
>3t5x_A PCI domain-containing protein 2; PCI, mRNA nuclear export,
transcription; 2.12A {Homo sapiens}
Length = 203
Score = 209 bits (534), Expect = 1e-66
Identities = 114/202 (56%), Positives = 151/202 (74%)
Query: 201 SSQYKDKSSLSQQITYKYYVGRKAMFDSDYKTANEYLTFAFQRCHKSSKKNKRLILIYLV 260
S KD S +Q++TYKYYVGRKAMFDSD+K A EYL+FAF+ CH+SS+KNKR+ILIYL+
Sbjct: 1 GSHMKDDYSTAQRVTYKYYVGRKAMFDSDFKQAEEYLSFAFEHCHRSSQKNKRMILIYLL 60
Query: 261 PVKMLLGFMPTRELLDKYDLLQLWDVTVAVKGGQINQLSDAMTKHQTFFIKCGIYLILEK 320
PVKMLLG MPT ELL KY L+Q +VT AV G + L +A+ KH+ FFI+CGI+LILEK
Sbjct: 61 PVKMLLGHMPTVELLKKYHLMQFAEVTRAVSEGNLLLLHEALAKHEAFFIRCGIFLILEK 120
Query: 321 LKMITYRNFYNIHKDINKNSVVELQQFLQALHYVEGKHIDLEDTHCLLCNLIHDGQLKGY 380
LK+ITYRN + + K + L FL AL +++ + +D+++ C+L NLI+ G +KGY
Sbjct: 121 LKIITYRNLFKKVYLLLKTHQLSLDAFLVALKFMQVEDVDIDEVQCILANLIYMGHVKGY 180
Query: 381 ISLAHQKVVLSKTDPFPKLSAI 402
IS HQK+V+SK +PFP LS +
Sbjct: 181 ISHQHQKLVVSKQNPFPPLSTV 202
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 49.9 bits (118), Expect = 1e-06
Identities = 61/409 (14%), Positives = 114/409 (27%), Gaps = 117/409 (28%)
Query: 19 DSNGLSVCFSFKNPTFKHEDFQKNVEDYVIRRYLEHPIFE---LVSAHLKCVQSIQANNF 75
D N S N + Q +RR L+ +E LV L VQ+ +A
Sbjct: 210 DPNWTSRSDHSSNIKLRIHSIQAE-----LRRLLKSKPYENCLLV---LLNVQNAKA--- 258
Query: 76 NEAYLSQSTIVQGFIKMFQ-QCKEDNWLLPVVQTVSLNLRLVSNKVDNKALASSIQDGNS 134
F CK +L + + L + + S+ +
Sbjct: 259 --------------WNAFNLSCK----ILLTTRFKQVTDFLSAATTTHI----SLDHHSM 296
Query: 135 GAKPRDALETTTEMLMTCFRICTSDNRTSENDSKKWGMLPFVNQLFKVYFRISKLHL--- 191
P + +L+ D P + R
Sbjct: 297 TLTPDEVKS----LLLKYLDCRPQDLPREVLT-----TNPRRLSIIAESIRDGLATWDNW 347
Query: 192 ----MKPLIRAIESSQYKDKSSLSQQITYKYYVGRKAMFDSDYK-------------TAN 234
L IESS + L K + R ++F +
Sbjct: 348 KHVNCDKLTTIIESSL----NVLEPAEYRKMFD-RLSVFPPSAHIPTILLSLIWFDVIKS 402
Query: 235 EYLTFAFQRCHKSS---KKNKRLIL----IYLVPVKMLLGFMPT--RELLDKYDLLQ--- 282
+ + + HK S K+ K + IYL +K+ L R ++D Y++ +
Sbjct: 403 DVMVVV-NKLHKYSLVEKQPKESTISIPSIYLE-LKVKLENEYALHRSIVDHYNIPKTFD 460
Query: 283 LWDVTVAVKGGQINQ-----LSDA-MTKHQTFFIKCGIYL----ILEKLK---------- 322
D+ L + + T F ++L + +K++
Sbjct: 461 SDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRM--VFLDFRFLEQKIRHDSTAWNASG 518
Query: 323 --------MITYRNFYNIHKDINKNSVVELQQFLQAL--HYVEGKHIDL 361
+ Y+ + + + V + FL + + + K+ DL
Sbjct: 519 SILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDL 567
Score = 43.3 bits (101), Expect = 1e-04
Identities = 63/473 (13%), Positives = 135/473 (28%), Gaps = 147/473 (31%)
Query: 36 HEDFQKNVEDYVIRRYLEH--PIF------ELVSAHLKCVQS--------IQANNFNEAY 79
H DF+ Y + L F + V K + S + + +
Sbjct: 6 HMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTL 65
Query: 80 L-------SQSTIVQGFIKMFQQCKEDNWLLPVVQTV----SLNLRLVSNKVDNKALASS 128
Q +VQ F++ + +L+ ++T S+ R+ + D L +
Sbjct: 66 RLFWTLLSKQEEMVQKFVEEVLR-INYKFLMSPIKTEQRQPSMMTRMYIEQRDR--LYND 122
Query: 129 IQDGNSGAKPR-DALETTTEMLMTCFRICTSDNRTSENDSKKW----GMLPFVNQ-LFKV 182
Q R + L+ E K G+L +
Sbjct: 123 NQVFAKYNVSRLQPYLKLRQALL-------------ELRPAKNVLIDGVLGSGKTWVALD 169
Query: 183 YFRISKLHLMKPL-IRAIESSQYKDKSSLSQQITYKYYVGRKAMFDSDYKTANEYLTFAF 241
K+ I + ++ + + Y D ++ + +++ +
Sbjct: 170 VCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQ-----IDPNWTSRSDHSSNIK 224
Query: 242 QRCHKSSKKNKRLI--------LIYLVPVKMLLGFMPTRELLDKYDL----------LQL 283
R H + +RL+ L+ L+ V+ + + ++L Q+
Sbjct: 225 LRIHSIQAELRRLLKSKPYENCLLVLLNVQ-------NAKAWNAFNLSCKILLTTRFKQV 277
Query: 284 WDVTVAVKGGQI--NQLSDAMTKHQT--FFIKC------------------GIYLILEKL 321
D A I + S +T + +K + +I E +
Sbjct: 278 TDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESI 337
Query: 322 K--MITYRNFYNIHKD----INKNSV-----VELQQFLQALH-YVEGKHI---------- 359
+ + T+ N+ +++ D I ++S+ E ++ L + HI
Sbjct: 338 RDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWF 397
Query: 360 -----DLEDTHCLLCNL-------------IHDGQLKGYISLA-----HQKVV 389
D+ L I L+ + L H+ +V
Sbjct: 398 DVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIV 450
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 47.7 bits (113), Expect = 5e-06
Identities = 68/445 (15%), Positives = 134/445 (30%), Gaps = 149/445 (33%)
Query: 20 SNGLSVCFSFKNPTFKH-------EDFQKN----------------VEDYVIR--RYLEH 54
S+G S+ PT E F K + V + Y+
Sbjct: 12 SHG-SLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSS 70
Query: 55 PIFELVSAHLKCVQSIQANNFNEAYLSQS---TIVQGFIKMFQQCKEDNWLLPVVQTVS- 110
+ V ++ F YL + + ++ + D L+ + +
Sbjct: 71 LVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQ-----ENDTTLVKTKELIKN 125
Query: 111 -LNLRLVSNKVDNK----ALASSIQDGNSGAKPRDALETTTEMLMTCFRICTSDNRTSEN 165
+ R+++ + +K AL ++ +GN+ L+ F
Sbjct: 126 YITARIMAKRPFDKKSNSALFRAVGEGNAQ-------------LVAIF------------ 160
Query: 166 DSKKWG----MLPFVNQLFKVYFRISKLHLMKPLIRAIESSQYKDKSSLSQQITYKYYVG 221
G + +L +Y + L+ LI+ + + + + G
Sbjct: 161 -----GGQGNTDDYFEELRDLY-QTYH-VLVGDLIKFS-AETLSELIRTTLDAEKVFTQG 212
Query: 222 ---RKAMFDSDYKTANEYLTFA---------FQRCHKSSKKNKRLILIYLVPVKMLLGFM 269
+ + + +YL Q H Y+V K LLGF
Sbjct: 213 LNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAH------------YVVTAK-LLGFT 259
Query: 270 PTRELLDKYD--LLQLWDVTVAVKGGQINQLSDAMTKHQTFFIKCGIYLILEKLKMI--- 324
P EL + AV +++ + ++FF + + L I
Sbjct: 260 PG-ELRSYLKGATGHSQGLVTAVA------IAETDSW-ESFF--VSVRKAITVLFFIGVR 309
Query: 325 ---TYRNFY---NIHKDINKN---------SVVEL-QQFLQALHYVEGKHIDLEDTHCLL 368
Y N +I +D +N S+ L Q+ +Q +++ ++H
Sbjct: 310 CYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQ-------DYVNKTNSH--- 359
Query: 369 CNLIHDGQLKGYISL--AHQKVVLS 391
L Q+ ISL + +V+S
Sbjct: 360 --LPAGKQV--EISLVNGAKNLVVS 380
>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha
solenoid, regulatory PART LID, hydrolase, protein
binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A
Length = 394
Score = 32.9 bits (74), Expect = 0.18
Identities = 40/267 (14%), Positives = 85/267 (31%), Gaps = 21/267 (7%)
Query: 141 ALETTTEMLMTCFRICTSDNRTSENDSKKWGMLPFVNQLFKVYFRISKLHLMKPLIRAIE 200
AL T + + R + K ++ K Y +S L + + +
Sbjct: 107 ALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSAR 166
Query: 201 SSQYKDKSSLSQQITYKYYVGRKAMFDS-DYKTANEYLTFAFQRCHKSSKKNKRLILIYL 259
++ Q G D D+KTA Y AF+ L Y+
Sbjct: 167 TTANAIYCPPKVQGALDLQSGILHAADERDFKTAFSYFYEAFEGFDSVDSVKALTSLKYM 226
Query: 260 VPVKMLLGF--MPTRELLDKY-------DLLQLWDVTVAVKGGQINQLSDAMTKHQTFFI 310
+ K++LG + + K D+ + V A + A+ +++
Sbjct: 227 LLCKIMLGQSDDVNQLVSGKLAITYSGRDIDAMKSVAEASHKRSLADFQAALKEYKKELA 286
Query: 311 KCGIYLILEKLKMITYRNF--YNIHKDINKNSVVELQQFLQALHYVEGKHIDLEDTHCLL 368
+ I++ Y N+ + I S V++ +++ + + L
Sbjct: 287 EDV---IVQAHLGTLYDTMLEQNLCRIIEPYSRVQVAHVAESI------QLPMPQVEKKL 337
Query: 369 CNLIHDGQLKGYISLAHQKVVLSKTDP 395
+I D + G + +++ + P
Sbjct: 338 SQMILDKKFSGILDQGEGVLIVFEETP 364
>2qn6_B Translation initiation factor 2 alpha subunit; initiation of
translation, GTP-binding, nucleotide-binding, protein
biosynthesis; HET: GDP; 2.15A {Sulfolobus solfataricus}
SCOP: d.58.51.1 PDB: 2qmu_B* 3qsy_B*
Length = 93
Score = 29.1 bits (65), Expect = 0.70
Identities = 13/64 (20%), Positives = 27/64 (42%), Gaps = 7/64 (10%)
Query: 193 KPLIRAIESSQYKDKSSLSQQITY----KYYVGRKAMFDSDYKTANEYLTFAFQRCHKSS 248
+ + +A+E+ + +S L+ +I +Y V ++ K A+E L K
Sbjct: 25 EVISKALENIEQDYESLLNIKIYTIGAPRYRVDVVG---TNPKEASEALNQIISNLIKIG 81
Query: 249 KKNK 252
K+
Sbjct: 82 KEEN 85
>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum,
metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB:
1tjc_A
Length = 104
Score = 28.0 bits (62), Expect = 1.8
Identities = 14/68 (20%), Positives = 30/68 (44%), Gaps = 7/68 (10%)
Query: 218 YYVGRKAMFDSDYKTANEYLTFAFQR--CHKSSKKNKRLILIYLVPVKMLLGFMP----- 270
+ +G+ A ++DY ++ A ++ + S +K +L YL G +
Sbjct: 9 FELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLL 68
Query: 271 TRELLDKY 278
T++LL+
Sbjct: 69 TKKLLELD 76
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 28.4 bits (62), Expect = 3.1
Identities = 7/25 (28%), Positives = 13/25 (52%)
Query: 123 KALASSIQDGNSGAKPRDALETTTE 147
K L +S++ + P A++ T E
Sbjct: 23 KKLQASLKLYADDSAPALAIKATME 47
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.322 0.135 0.397
Gapped
Lambda K H
0.267 0.0625 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,860,853
Number of extensions: 330241
Number of successful extensions: 675
Number of sequences better than 10.0: 1
Number of HSP's gapped: 665
Number of HSP's successfully gapped: 22
Length of query: 406
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 310
Effective length of database: 4,021,377
Effective search space: 1246626870
Effective search space used: 1246626870
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 58 (26.3 bits)